Summary of what happened:
I have tried performing an initial preprocessing pipeline using fMRIPrep for data of a single subject, including structural T1- and T2-weighted volumes and rs-fMRI data. However, I get some errors.
Command used (and if a helper script was used, a link to the helper script or the command generated):
fmriprep \
/home/jovyan/Desktop/dataset/raw \
/home/jovyan/Desktop/dataset/derivatives \
participant \
--output-spaces MNI152NLin2009cAsym \
--fs-license-file /home/jovyan/Desktop/dataset/license.txt \
--skip_bids_validation
Version:
fmriprep 25.1.3
Environment (Docker, Singularity / Apptainer, custom installation):
NeuroDesktop
Data formatted according to a validatable standard? Please provide the output of the validator:
Relevant log outputs (up to 20 lines):
ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0020, pval=0.0000 < threshold=0.0050)
Manual Talairach alignment may be necessary, or
include the -notal-check flag to skip this test,
making sure the -notal-check flag follows -all
or -autorecon1 in the command string.
See:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach
ERROR: Talairach failed!
Linux d70920d3c5f4 5.15.0-161-generic #171-Ubuntu SMP Sat Oct 11 08:17:01 UTC 2025 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s sub-032301 exited with ERRORS at Wed Dec 17 19:44:30 UTC 2025
For more details, see the log file /home/jovyan/Desktop/dataset/derivatives/sourcedata/freesurfer/sub-032301/scripts/recon-all.log
To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Stderr:
Traceback:
RuntimeError: subprocess exited with code 1.